Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002929.1 Hibiscus syriacus cultivar Beakdansim tig00006053_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 38423
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2092 original size:15 final size:15
Alignment explanation
Indices: 2072--2101 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2062 AGAAGTCTAG
2072 AGACGTAGGCATAAT
1 AGACGTAGGCATAAT
2087 AGACGTAGGCATAAT
1 AGACGTAGGCATAAT
2102 TGGTCGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (15 bp):
AGACGTAGGCATAAT
Found at i:4094 original size:20 final size:20
Alignment explanation
Indices: 4069--4120 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
4059 GAAACTTGAA
4069 AGTCAAGAAGGGGG-TGAATG
1 AGTCAA-AAGGGGGATGAATG
4089 AGTCAAAAGGGGGACTGAATG
1 AGTCAAAAGGGGGA-TGAATG
*
4110 GGTCAAAAGGG
1 AGTCAAAAGGG
4121 ATGCCCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 7 0.24
20 6 0.21
21 16 0.55
ACGTcount: A:0.37, C:0.08, G:0.42, T:0.13
Consensus pattern (20 bp):
AGTCAAAAGGGGGATGAATG
Found at i:12755 original size:19 final size:19
Alignment explanation
Indices: 12731--12769 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
12721 TTTATAACAT
12731 ATTCATAACAGACTCCAAC
1 ATTCATAACAGACTCCAAC
*
12750 ATTCATAACAGACTTCAAC
1 ATTCATAACAGACTCCAAC
12769 A
1 A
12770 ACTCACTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (19 bp):
ATTCATAACAGACTCCAAC
Found at i:12978 original size:36 final size:36
Alignment explanation
Indices: 12934--13419 Score: 491
Period size: 36 Copynumber: 13.3 Consensus size: 36
12924 ACATCTGTCT
* * *
12934 GTTCGATTTGAATCGGAAGTGCCGATGCTTCCTTCT
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
* * *
12970 GTTAGATTTGAATCGGAAGTGCCGATGTCTCCTTCC
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
* * *
13006 GTTCGATTTGAATCGAAAGTGCCGATGTCTCCTTCC
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
*
13042 GTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCC
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
* * *
13078 GTTCGACTTGAATCGAAAGTGTCGATGCCTCATTCC
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
*
13114 GTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCC
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
* * **
13150 GTTCGACTTGAAATGCGG-A---CAC-AAGACCTTCTTGAT
1 GTTCGACTTG-AAT-CGGAAGTGC-CGATG-CCTCCTT-CC
** * * * * *
13186 GAAAAGACGAACACTTGAAACGAAAGTG-CGATACAT-CTGTCT
1 G----TTCG---ACTTGAATCGGAAGTGCCGATGCCTCCT-TCC
* * *
13228 GTTCGATTTGAATCGGAAGTGCCGATGCTTCCTTCT
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
* *
13264 GTTCGATTTGAATCGGAAGTGCCGATGCCTCCTTCT
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
*
13300 GTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCC
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
* * *
13336 GTTCGACTTGAATCGAAAGTGTCGATGCCTCATTCC
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
*
13372 GTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCC
1 GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
13408 GTTCGACTTGAA
1 GTTCGACTTGAA
13420 ATGCGGACAC
Statistics
Matches: 388, Mismatches: 42, Indels: 40
0.83 0.09 0.09
Matches are distributed among these distances:
34 3 0.01
35 19 0.05
36 334 0.86
37 6 0.02
38 5 0.01
40 2 0.01
41 2 0.01
42 7 0.02
43 9 0.02
44 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (36 bp):
GTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTCC
Found at i:13410 original size:294 final size:294
Alignment explanation
Indices: 12881--13419 Score: 961
Period size: 294 Copynumber: 1.8 Consensus size: 294
12871 AACTTCTTCA
12881 ACCTTCTTGATGAAAAGACGAACACTTAAAACGAAAGTACGATACATCTGTCTGTTCGATTTGAA
1 ACCTTCTTGATGAAAAGACGAACACTTAAAACGAAAGTACGATACATCTGTCTGTTCGATTTGAA
*
12946 TCGGAAGTGCCGATGCTTCCTTCTGTTAGATTTGAATCGGAAGTGCCGATGTCTCCTTCCGTTCG
66 TCGGAAGTGCCGATGCTTCCTTCTGTTAGATTTGAATCGGAAGTGCCGATGCCTCCTTCCGTTCG
* * * *
13011 ATTTGAATCGAAAGTGCCGATGTCTCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATT
131 ACTTGAATCGAAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAAGTGCCGATGCCTCATT
*
13076 CCGTTCGACTTGAATCGAAAGTGTCGATGCCTCATTCCGTTCGACTTGAATCGGAAGTGCCGATG
196 CCGTTCGACTTGAATCGAAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGGAAGTGCCGATG
13141 CCTCATTCCGTTCGACTTGAAATGCGGACACAAG
261 CCTCATTCCGTTCGACTTGAAATGCGGACACAAG
* *
13175 ACCTTCTTGATGAAAAGACGAACACTTGAAACGAAAGTGCGATACATCTGTCTGTTCGATTTGAA
1 ACCTTCTTGATGAAAAGACGAACACTTAAAACGAAAGTACGATACATCTGTCTGTTCGATTTGAA
* *
13240 TCGGAAGTGCCGATGCTTCCTTCTGTTCGATTTGAATCGGAAGTGCCGATGCCTCCTTCTGTTCG
66 TCGGAAGTGCCGATGCTTCCTTCTGTTAGATTTGAATCGGAAGTGCCGATGCCTCCTTCCGTTCG
* *
13305 ACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAAGTGTCGATGCCTCATT
131 ACTTGAATCGAAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAAGTGCCGATGCCTCATT
*
13370 CCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAA
196 CCGTTCGACTTGAATCGAAAGTGCCGATGCCTCATTCCGTTCGACTTGAA
13420 ATGCGGACAC
Statistics
Matches: 232, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
294 232 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (294 bp):
ACCTTCTTGATGAAAAGACGAACACTTAAAACGAAAGTACGATACATCTGTCTGTTCGATTTGAA
TCGGAAGTGCCGATGCTTCCTTCTGTTAGATTTGAATCGGAAGTGCCGATGCCTCCTTCCGTTCG
ACTTGAATCGAAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAAGTGCCGATGCCTCATT
CCGTTCGACTTGAATCGAAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGGAAGTGCCGATG
CCTCATTCCGTTCGACTTGAAATGCGGACACAAG
Found at i:13431 original size:258 final size:258
Alignment explanation
Indices: 12967--13434 Score: 875
Period size: 258 Copynumber: 1.8 Consensus size: 258
12957 GATGCTTCCT
12967 TCTGTTAGATTTGAATCGGAAGTGCCGATGTCTCCTTCCGTTCGATTTGAATCGAAAGTGCCGAT
1 TCTGTTAGATTTGAATCGGAAGTGCCGATGTCTCCTTCCGTTCGATTTGAATCGAAAGTGCCGAT
*
13032 GTCTCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAAG
66 GCCTCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAAG
13097 TGTCGATGCCTCATTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAA
131 TGTCGATGCCTCATTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAA
13162 ATGCGGACACAAGACCTTCTTGATGAAAAGACGAACACTTGAAACGAAAGTGCGATACATCTG
196 ATGCGGACACAAGACCTTCTTGATGAAAAGACGAACACTTGAAACGAAAGTGCGATACATCTG
* * *
13225 TCTGTTCGATTTGAATCGGAAGTGCCGATG-CTTCCTTCTGTTCGATTTGAATCGGAAGTGCCGA
1 TCTGTTAGATTTGAATCGGAAGTGCCGATGTC-TCCTTCCGTTCGATTTGAATCGAAAGTGCCGA
*
13289 TGCCTCCTTCTGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAA
65 TGCCTCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAA
13354 GTGTCGATGCCTCATTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGA
130 GTGTCGATGCCTCATTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGA
13419 AATGCGGACACAAGAC
195 AATGCGGACACAAGAC
13435 TGTATGATAG
Statistics
Matches: 204, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
257 1 0.00
258 203 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (258 bp):
TCTGTTAGATTTGAATCGGAAGTGCCGATGTCTCCTTCCGTTCGATTTGAATCGAAAGTGCCGAT
GCCTCCTTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAATCGAAAG
TGTCGATGCCTCATTCCGTTCGACTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGACTTGAA
ATGCGGACACAAGACCTTCTTGATGAAAAGACGAACACTTGAAACGAAAGTGCGATACATCTG
Found at i:16688 original size:30 final size:30
Alignment explanation
Indices: 16652--16725 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
16642 AAAACTGAAT
**
16652 TAAACGGGGAC-GGAGAAAAATTGTTTATGC
1 TAAACGGGGACGGGA-AAAAACCGTTTATGC
16682 TAAACGGGGACGGGAAAAAACCGTTTATGC
1 TAAACGGGGACGGGAAAAAACCGTTTATGC
*
16712 TAAACGAGGACGGG
1 TAAACGGGGACGGG
16726 GACGGGTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 37 0.93
31 3 0.08
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (30 bp):
TAAACGGGGACGGGAAAAAACCGTTTATGC
Found at i:22544 original size:126 final size:125
Alignment explanation
Indices: 22431--22654 Score: 344
Period size: 126 Copynumber: 1.8 Consensus size: 125
22421 AAAAATAATC
*
22431 ATATTTT-GATATTTATTTATTTTT-AATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGC
1 ATATTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGC
* ** *
22494 CCTTTTCTGATATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATTTTAAGAAA
66 CATTTTCTGATATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTA-TAGAAAAAA
* * *
22555 ATGTTTTGGTTATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGTACCTAGAAGC
1 ATATTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGC
*
22620 TATTTTCTGATATTTTTAAATAAATAAATATCTTA
66 CATTTTCTGATATTTTTAAATAAATAAATATCTTA
22655 CTATATTAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
124 6 0.07
125 16 0.17
126 70 0.76
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (125 bp):
ATATTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGC
CATTTTCTGATATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATAGAAAAAA
Found at i:22684 original size:115 final size:115
Alignment explanation
Indices: 22552--22769 Score: 346
Period size: 115 Copynumber: 1.9 Consensus size: 115
22542 TTATTTTAAG
* * *
22552 AAAATGTTTTGGTTATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGTACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
* * *
22617 AGCTATTTTCTGATATTTTTAAATAAATAAATATCTTACTATATTAAAAT
66 AACCATTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAAAAT
* *
22667 AAAATGTTTTTGATATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
* *
22732 AACCCTTTTCTGATATTTCTAAATAAGTAAATATCTTA
66 AACCATTTTCTGATATTTCTAAATAAATAAATATCTTA
22770 TTTATGTATA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
115 93 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (115 bp):
AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
AACCATTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAAAAT
Found at i:24795 original size:7 final size:7
Alignment explanation
Indices: 24783--24826 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
24773 CATACATACA
24783 TTTGCAT
1 TTTGCAT
24790 TTTGCAT
1 TTTGCAT
24797 CCTTT-CAT
1 --TTTGCAT
*
24805 TTTTCAT
1 TTTGCAT
24812 TTTGCAT
1 TTTGCAT
24819 TTTGCAT
1 TTTGCAT
24826 T
1 T
24827 GATACTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 3 0.09
7 24 0.73
8 3 0.09
9 3 0.09
ACGTcount: A:0.14, C:0.18, G:0.09, T:0.59
Consensus pattern (7 bp):
TTTGCAT
Found at i:29187 original size:114 final size:114
Alignment explanation
Indices: 28982--29204 Score: 356
Period size: 114 Copynumber: 2.0 Consensus size: 114
28972 TGCCACGTTA
* * *
28982 TCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGA
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTCGAAGTGTTCTTTGAGTTATATGATCTGA
* * *
29047 TTTGGTACGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGC
66 TTCGGTACGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGC
* *
29096 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTCGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTCGAAGTGTTCTTTGAGTTATATGATCTGA
* *
29161 TTCGGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAA
66 TTCGGTACGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
29205 CTGCATGATC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (114 bp):
TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTCGAAGTGTTCTTTGAGTTATATGATCTGA
TTCGGTACGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGC
Found at i:31360 original size:54 final size:54
Alignment explanation
Indices: 31278--31433 Score: 249
Period size: 54 Copynumber: 2.9 Consensus size: 54
31268 AGAAATCTTG
* *
31278 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
1 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
*
31332 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
* * * *
31386 GCAGAAGCCACATGAAAGGATGAATGCGCTGTCAAATGTTTAACGAAC
1 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
31434 CTGCTATTCT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (54 bp):
GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
Found at i:31827 original size:22 final size:22
Alignment explanation
Indices: 31798--31852 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
31788 ATCTACACTC
31798 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
31820 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
31842 TTCAAAGATGA
1 TTCAAAGATGA
31853 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:32700 original size:74 final size:75
Alignment explanation
Indices: 32532--32708 Score: 243
Period size: 74 Copynumber: 2.4 Consensus size: 75
32522 TTTCCCACAT
* *
32532 CTGTAAGTCCTACAGTGTATGATGTTTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTCAAAGC
1 CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCTTTC-GGAGCTTTTTGATGTTTTCAAAAC
* *
32597 CTTAGGGTCAT
65 CTTAGAGTCAG
*
32608 CTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTT-GGAGC-TTTTGATGTTTTCAAAAC
1 CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAG-CTTTCGGAGCTTTTTGATGTTTTCAAAAC
*
32671 CTTCGAGTCAG
65 CTTAGAGTCAG
*
32682 CTGTAAGCCCTACAGTGCA-GAATGTTT
1 CTGTAAGTCCTACAGTGCATG-ATGTTT
32709 TTTTATTATT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
73 1 0.01
74 48 0.53
75 5 0.05
76 33 0.36
77 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (75 bp):
CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCTTTCGGAGCTTTTTGATGTTTTCAAAACC
TTAGAGTCAG
Found at i:32927 original size:113 final size:113
Alignment explanation
Indices: 32729--33247 Score: 977
Period size: 113 Copynumber: 4.6 Consensus size: 113
32719 AAAACATTTT
*
32729 CAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
32794 CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
66 CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
32842 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
32907 CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
66 CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
32955 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
*
33020 CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTAC
66 CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
*
33068 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAA
1 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
33133 CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
66 CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
* *
33181 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA-AGAGTTCATAATAAGAAGA
1 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA-AGTTCATAATGAGAAGA
33245 ACT
65 ACT
33248 CATCTGAAGA
Statistics
Matches: 400, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
112 1 0.00
113 399 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (113 bp):
CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
CTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
Found at i:33243 original size:40 final size:39
Alignment explanation
Indices: 33187--33287 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 39
33177 TTACCAGGTC
33187 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAA
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG-AA
* *
33227 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA
33266 GAAGTTCATAATGAGAAGAACT
1 G-AGTTCATAATGAGAAGAACT
33288 TGTTCAACTT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 3 0.05
40 54 0.95
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.19
Consensus pattern (39 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA
Found at i:33257 original size:153 final size:154
Alignment explanation
Indices: 33074--33401 Score: 568
Period size: 153 Copynumber: 2.1 Consensus size: 154
33064 TTACCAGGTC
33074 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * **
33139 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC-CAGGTCGAGTTCATAATGAGAA
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACGAAGGTAAAGTTCATAATGAGAA
33203 GAACTCATCTGAAGAAAGAAGAAA
131 GAACTCATCTGAAGAAAGAAGAAA
* *
33227 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
33292 CAACTTTTCGCTTGAATTCATTATTCGATGGATCAACATTACGAAGGTAAAGTTCATAATGAGAA
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACGAAGGTAAAGTTCATAATGAGAA
*
33357 GAACTCATCTGAAGAAGGAAGAAA
131 GAACTCATCTGAAGAAAGAAGAAA
*
33381 AAGTTCATAATGAGAAGAACT
1 GAGTTCATAATGAGAAGAACT
33402 TGTTCAACCT
Statistics
Matches: 164, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
153 103 0.63
154 61 0.37
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (154 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACGAAGGTAAAGTTCATAATGAGAA
GAACTCATCTGAAGAAAGAAGAAA
Found at i:33432 original size:114 final size:115
Alignment explanation
Indices: 33228--33860 Score: 613
Period size: 123 Copynumber: 5.3 Consensus size: 115
33218 AAGAAGAAAG
*
33228 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
33293 AA-CTTTTCGCTTGAAT-TCAT--TATTCGATGGATCAACATTACGA-AGGTAA
66 AACCTTTT-GCTTGACTCT-ATCCAATTAGATGGATCAACATTTCCAGA-G-AA
*
33342 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
33407 AACCTTTTGCTTGAAT-TCAT-C-ATTCGATGGATCAACATTGCCAG-GTAG
66 AACCTTTTGCTTGACTCT-ATCCAATTAGATGGATCAACATTTCCAGAG-AA
* * *
33455 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
33520 AACCTTTTGCTTGACTCTATCCCAGAAGGAGATAGATCAGCATCAACATTTCCAGAGAA
66 AACCTTTTGCTTGACTCTAT-CC---A--A-TTAGAT--GGATCAACATTTCCAGAGAA
* *
33579 AGTTCATAATGAGAAGAACTCATCTGAAG-AGAAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** * *
33643 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAATTTTTCAGAGAA
66 AACCTTTTGCTTGACTCTATC-C--AATTAGATGGATC-A-A-C-A-TTTCCAGAGAA
* *
33701 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * *
33766 AACC-TTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCATTTCCATAAAA
66 AACCTTTTGCTTGACTCTATC-C--AAT----TAGAT--GGATCAACATTTCCAGAGAA
*
33824 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
33861 GAATTTGTTC
Statistics
Matches: 447, Mismatches: 43, Indels: 49
0.83 0.08 0.09
Matches are distributed among these distances:
113 81 0.18
114 98 0.22
115 6 0.01
117 3 0.01
118 1 0.00
119 5 0.01
120 2 0.00
121 2 0.00
122 63 0.14
123 131 0.29
124 45 0.10
125 2 0.00
126 4 0.01
127 1 0.00
128 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.26
Consensus pattern (115 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTGACTCTATCCAATTAGATGGATCAACATTTCCAGAGAA
Found at i:33472 original size:267 final size:265
Alignment explanation
Indices: 32961--33514 Score: 975
Period size: 267 Copynumber: 2.1 Consensus size: 265
32951 TTACCAGGTC
*
32961 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* **
33026 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAG
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACAAGGTAAAGTTCATAATGAGAAG
*
33091 AACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
131 AACTCATCTGAAGAAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
* *
33156 TCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
196 TCATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
33221 AAGAAA
261 AAG-AA
33227 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
33292 CAACTTTTCGCTTGAATTCATTATTCGATGGATCAACATTACGAAGGTAAAGTTCATAATGAGAA
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTAC-AAGGTAAAGTTCATAATGAGAA
*
33357 GAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGA
130 GAACTCATCTGAAGAAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGA
*
33421 ATTCATCATTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
194 ATTCATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
33486 AGAAGAA
259 AGAAGAA
33493 GAAGTTCATAATAAGAAGAACT
1 G-AGTTCATAATAAGAAGAACT
33515 TGTTAAACCT
Statistics
Matches: 275, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
266 108 0.39
267 162 0.59
268 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (265 bp):
GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACAAGGTAAAGTTCATAATGAGAAG
AACTCATCTGAAGAAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
TCATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
AAGAA
Found at i:33473 original size:380 final size:379
Alignment explanation
Indices: 32848--33533 Score: 1232
Period size: 380 Copynumber: 1.8 Consensus size: 379
32838 TTACCAGGTC
*
32848 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * **
32913 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAG
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACAAGGTAAAGTTCATAATGAGAAG
*
32978 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
131 AACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
*
33043 TCATCATTCGATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
196 TCATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
* *
33108 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATGGAT
261 AAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTT-GCTTGAATTCATCATTCGATGGAT
33172 CAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAA
325 CAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAA
33227 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
33292 CAACTTTTCGCTTGAATTCATTATTCGATGGATCAACATTACGAAGGTAAAGTTCATAATGAGAA
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTAC-AAGGTAAAGTTCATAATGAGAA
33357 GAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGA
130 GAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGA
*
33421 ATTCATCATTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
194 ATTCATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
33486 AGAAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTTGCTTGA
259 AGAAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTTGCTTGA
33534 CTCTATCCCA
Statistics
Matches: 293, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
379 104 0.35
380 179 0.61
381 10 0.03
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (379 bp):
GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACAAGGTAAAGTTCATAATGAGAAG
AACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
TCATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
AAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTTGCTTGAATTCATCATTCGATGGATC
AGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAA
Found at i:33511 original size:113 final size:113
Alignment explanation
Indices: 33228--33772 Score: 553
Period size: 114 Copynumber: 4.6 Consensus size: 113
33218 AAGAAGAAAG
* *
33228 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
33293 AA-CTTTTCGCTTGAATTCATTATTCGATGGATCAACATTACGAAGGTAA
66 AACCTTTT-GCTTGAATTCATCATTCGATGGATCAACATTAC-CAGGTAA
* *
33342 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
33407 AACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTGCCAGGTAG
66 AACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTACCAGGTAA
* *
33455 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
33520 AACCTTTTGCTTG-ACTCTATCCCAGAAGGAGATAGATCAGCATCAACATTTCCAGAG-AA
66 AACCTTTTGCTTGAATTC-AT--C------A-TTCGAT--GGATCAACATTACCAG-GTAA
* *
33579 AGTTCATAATGAGAAGAACTCATCTGAAGAGA-AAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *** * **
33643 AACCTTTTGCTCG-ACTCTATCGCAGAAGGAGATAGATCAACATCAATTTTTCAGAG-AA
66 AACCTTTTGCTTGAATTC-AT--C---ATTCGATGGATC-A-A-C-A-TTACCAG-GTAA
* * *
33701 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
33766 AACCTTT
66 AACCTTT
33773 GTTTGATTCT
Statistics
Matches: 380, Mismatches: 31, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
112 3 0.01
113 81 0.21
114 96 0.25
115 6 0.02
117 3 0.01
118 1 0.00
119 5 0.01
120 4 0.01
121 2 0.01
122 44 0.12
123 88 0.23
124 46 0.12
125 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTACCAGGTAA
Found at i:33512 original size:227 final size:230
Alignment explanation
Indices: 33226--33653 Score: 582
Period size: 227 Copynumber: 1.8 Consensus size: 230
33216 GAAAGAAGAA
* *
33226 AGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* * ** * * *
33291 TCAA-CTTTTCGCTTGA-AT-TC-ATTA-TTCGAT-GGATCAACATTACGAAG-GTAAAGTTCAT
66 TAAACCTTTT-GCTTGACATCCCAAGGAGATAGATAGCATCAACATTAC-AAGAG-AAAGTTCAT
*
33349 AATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
128 AATGAGAAGAACTCATCTGAAG-AGAAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
33414 TGCTTGAATTCATCATTCGATGGATCAACATTGCCAGGT
192 TGCTTGAATTCATCATTCGATGGATCAACATTGCCAGGT
*
33453 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 AGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* *
33518 TAAACCTTTTGCTTGACTCTATCCCAGAAGGAGATAGATCAGCATCAACATTTCCAGAGAAAGTT
66 TAAACCTTTTGCTTGA--C-ATCCC--AAGGAGATAGAT-AGCATCAACATTACAAGAGAAAGTT
* *
33583 CATAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
125 CATAATGAGAAGAACTCATCTGAAGAGAAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCT
33648 TTTGCT
190 TTTGCT
33654 CGACTCTATC
Statistics
Matches: 173, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
227 71 0.41
228 5 0.03
231 2 0.01
232 1 0.01
235 2 0.01
236 47 0.27
237 33 0.19
238 12 0.07
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (230 bp):
AGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGT
TAAACCTTTTGCTTGACATCCCAAGGAGATAGATAGCATCAACATTACAAGAGAAAGTTCATAAT
GAGAAGAACTCATCTGAAGAGAAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
TGAATTCATCATTCGATGGATCAACATTGCCAGGT
Found at i:34605 original size:13 final size:14
Alignment explanation
Indices: 34585--34625 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
34575 CACCAAAACC
34585 ACGAGCAAACAACG
1 ACGAGCAAACAACG
*
34599 A-GAGCAAGCAACG
1 ACGAGCAAACAACG
*
34612 ACGA-CCAACAACG
1 ACGAGCAAACAACG
34625 A
1 A
34626 AAAGAAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.49, C:0.29, G:0.22, T:0.00
Consensus pattern (14 bp):
ACGAGCAAACAACG
Found at i:35900 original size:115 final size:115
Alignment explanation
Indices: 35768--35985 Score: 348
Period size: 115 Copynumber: 1.9 Consensus size: 115
35758 TTATTTTAAG
* * *
35768 AAAATGTTTTGGTTATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGTACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
* *
35833 AGCTC-TTTTCTGATATTTTTGAATAAATAAATATCTTACTATATTAAAAT
66 AGC-CATTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAAAAT
* *
35883 AAAATGTTTTTGATATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
*
35948 AGCCATTTTCTGATATTTCTAAATAAGTAAATATCTTA
66 AGCCATTTTCTGATATTTCTAAATAAATAAATATCTTA
35986 TTTATGTATA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 1 0.01
115 93 0.99
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (115 bp):
AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
AGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAAAAT
Done.